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Estimated time of infection vs. confirmed infections

Following the ideas from Tomas Pueyo's Medium post "Coronavirus: Why You Must Act Now" [1], we assume the average time from infection to death at 23 days [2]. The data is pulled from the COVID-19 Data Repository by Johns Hopkins CSSE [3] every hour. Countries with a minimnum of 1000 confirmed cases and 40 confirmed deaths are included in this analysis.

The time from infection to death is equal to the incubation period plus the time from symptoms to death. This is used to estimate the time of the infections that lead to the observed deaths. We take the last fatality rate per country (total_cases/total_deaths) to estimate the number of infections that are responsible for the observed deaths.

In the figures below, you can observe successive waves of infections (dashed), detections (black) and deaths (red) for each country. The upper panel shows the absolute number of events. The dashed lines show the estimated number of infections. The lower panel shows the normalized number of events. Here the temporal delay between the waves and the relative change between each other can be observed.

[1] https://medium.com/@tomaspueyo/coronavirus-act-today-or-people-will-die-f4d3d9cd99ca

[2] https://github.com/midas-network/COVID-19/tree/master/parameter_estimates/2019_novel_coronavirus

[3] https://github.com/CSSEGISandData/COVID-19/tree/master/csse_covid_19_data/csse_covid_19_time_series

US
Brazil
India
Mexico
United Kingdom
Italy
France
Spain
Iran
Peru
Argentina
Colombia
Russia
South Africa
Indonesia
Chile
Belgium
Ecuador
Germany
Iraq
Turkey
Canada
Bolivia
Ukraine
Netherlands
Romania
Poland
Philippines
Pakistan
Egypt
Bangladesh
Sweden
Saudi Arabia
Czechia
China
Morocco
Guatemala
Portugal
Panama
Switzerland
Honduras
Israel
Hungary
Dominican Republic
Algeria
Ireland
Moldova
Kazakhstan
Japan
Tunisia
Bulgaria
Afghanistan
Armenia
Ethiopia
Kyrgyzstan
Bosnia and Herzegovina
Paraguay
Costa Rica
Burma
Austria
Oman
Jordan
Nigeria
North Macedonia
Kenya
Nepal
El Salvador
Belarus
Libya
Australia
Serbia
Sudan
Azerbaijan
Venezuela
Kuwait
Croatia
Greece
Denmark
Kosovo
Lebanon
Uzbekistan
Albania
Slovenia
United Arab Emirates
West Bank and Gaza
South Korea
Georgia
Cameroon
Finland
Slovakia
Zambia
Montenegro
Bahrain
Senegal
Ghana
Congo (Kinshasa)
Angola
Norway
Malaysia
Madagascar
Qatar
Lithuania
Luxembourg
Namibia
Uganda
Cote d'Ivoire

Ahead of the curve

Some countries start testing the population earlier in the outbreak than others. The time delay between the wave of deaths and the wave of confirmed cases is indicative for how early a country is detecting new cases ahead of the increase of deaths. Earlier detection means a better chances for successful isolation of an infected person and treatment of the desease.

We measure the distance of the maximum of cumulative deaths and new deaths to the number of infections to estimate the progression of the infection across countries.

If, in the early phase of the infection wave, the number of deaths rises faster than the number of confirmed cases, the distance drops, indicating that

A comparison of countries with respect to their mean time for reponse is presented below.

To determine the above values, we plot the number of confirmed cases (solid black lines) and the number of deaths (dashed black lines). From this, we measure the distance of the day of maximum deaths (dashed red lines) to the day of confirmed cases at this y-value.

The distance is indicative for how fast the humber of confirmed cases increases comapred to the increase of the number of deaths.

US
Brazil
India
Mexico
United Kingdom
Italy
France
Spain
Iran
Peru
Argentina
Colombia
Russia
South Africa
Indonesia
Chile
Belgium
Ecuador
Germany
Iraq
Turkey
Canada
Bolivia
Ukraine
Netherlands
Romania
Poland
Philippines
Pakistan
Egypt
Bangladesh
Sweden
Saudi Arabia
Czechia
China
Morocco
Guatemala
Portugal
Panama
Switzerland
Honduras
Israel
Hungary
Dominican Republic
Algeria
Ireland
Moldova
Kazakhstan
Japan
Tunisia
Bulgaria
Afghanistan
Armenia
Ethiopia
Kyrgyzstan
Bosnia and Herzegovina
Paraguay
Costa Rica
Burma
Austria
Oman
Jordan
Nigeria
North Macedonia
Kenya
Nepal
El Salvador
Belarus
Libya
Australia
Serbia
Sudan
Azerbaijan
Venezuela
Kuwait
Croatia
Greece
Denmark
Kosovo
Lebanon
Uzbekistan
Albania
Slovenia
United Arab Emirates
West Bank and Gaza
South Korea
Georgia
Cameroon
Finland
Slovakia
Zambia
Montenegro
Bahrain
Senegal
Ghana
Congo (Kinshasa)
Angola
Norway
Malaysia
Madagascar
Qatar
Lithuania
Luxembourg
Namibia
Uganda
Cote d'Ivoire